Report generated at: 09/09/2021 12:10 PM PDT

CP Figure

CP indiv muts

CP indiv muts (violin)

CP indiv muts (Jittery)

CP indiv muts (Jittery, Boxplot)

CP combo muts

CP combo muts (Jittery)

CP combo muts (violin)

CP combo muts (Jittery, Boxplot)

VP Figure

VP indiv muts

VP indiv muts (Jittery)

VP indiv muts (Violin)

VP indiv By vaccine type

VP combo muts

VP combo muts (Jittery)

VP combo muts (Violin)

VP combo By vaccine type

Plasma Figure

VP figure

Plasma titer

DMS

DMS vs fold

DMS vs fold 3D

DMS vs fold by mab

DMS no fold

DMS Statistic Test

All

## Warning in chisq.test(tbl): Chi-squared approximation may be incorrect
## 
##  Pearson's Chi-squared test
## 
## data:  tbl
## X-squared = 51339, df = 26596, p-value < 2.2e-16
## 
##  Spearman's rank correlation rho
## 
## data:  df$fold and df$score
## S = 60715068, p-value < 2.2e-16
## alternative hypothesis: true rho is not equal to 0
## sample estimates:
##       rho 
## 0.5600012

Fold >= 10 and score >= 0.1

## Warning in chisq.test(tbl): Chi-squared approximation may be incorrect
## 
##  Pearson's Chi-squared test
## 
## data:  tbl
## X-squared = 8111.2, df = 7704, p-value = 0.0006195
## 
##  Spearman's rank correlation rho
## 
## data:  df_Fold_gt10$fold and df_Fold_gt10$score
## S = 691036, p-value = 0.0007056
## alternative hypothesis: true rho is not equal to 0
## sample estimates:
##       rho 
## 0.2522681

Fold >= 10

## Warning in chisq.test(tbl): Chi-squared approximation may be incorrect
## 
##  Pearson's Chi-squared test
## 
## data:  tbl
## X-squared = 12980, df = 13261, p-value = 0.9584
## 
##  Spearman's rank correlation rho
## 
## data:  df_Fold_gt10$fold and df_Fold_gt10$score
## S = 948988, p-value < 2.2e-16
## alternative hypothesis: true rho is not equal to 0
## sample estimates:
##       rho 
## 0.5556017

Fold < 10

## Warning in chisq.test(tbl): Chi-squared approximation may be incorrect
## 
##  Pearson's Chi-squared test
## 
## data:  tbl
## X-squared = 5111.9, df = 3196, p-value < 2.2e-16
## 
##  Spearman's rank correlation rho
## 
## data:  df_Fold_lt10$fold and df_Fold_lt10$score
## S = 51071472, p-value = 0.0008397
## alternative hypothesis: true rho is not equal to 0
## sample estimates:
##       rho 
## 0.1254933

Fold >10 and score < 0.1

## Warning in chisq.test(tbl): Chi-squared approximation may be incorrect
## 
##  Pearson's Chi-squared test
## 
## data:  tbl
## X-squared = 763.17, df = 800, p-value = 0.8209
## 
##  Spearman's rank correlation rho
## 
## data:  df_Score_outlier$fold and df_Score_outlier$score
## S = 27190, p-value = 0.3788
## alternative hypothesis: true rho is not equal to 0
## sample estimates:
##       rho 
## 0.1187973

Mab, Score

## Warning in chisq.test(tbl): Chi-squared approximation may be incorrect
## 
##  Pearson's Chi-squared test
## 
## data:  tbl
## X-squared = 7240, df = 2440, p-value < 2.2e-16

Variant summary

Indiv summary (without distinguish study type)

Indiv summary (distinguish by study type)

Domain summary

Variant summary (distinguish by study type)